data_YLP # _chem_comp.id YLP _chem_comp.name "(S)-2-amino-6-propionamidohexanoic(((2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl)methyl phosphoric) anhydride" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C19 H30 N7 O9 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2013-11-28 _chem_comp.pdbx_modified_date 2014-03-14 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 531.457 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YLP _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 4CH5 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal YLP C C C 0 1 N N N 43.525 133.885 -10.946 2.835 3.188 0.301 C YLP 1 YLP N N N 0 1 N N N 42.753 135.354 -9.244 5.227 3.601 0.180 N YLP 2 YLP O O O 0 1 N N N 42.631 134.152 -11.742 2.816 3.952 1.236 O YLP 3 YLP N1 N1 N 0 1 Y N N 35.951 126.302 -11.722 -6.618 -4.633 -0.174 N1 YLP 4 YLP C2 C2 C 0 1 Y N N 36.128 126.345 -10.375 -6.929 -3.645 -0.993 C2 YLP 5 YLP N3 N3 N 0 1 Y N N 37.114 127.029 -9.770 -6.257 -2.514 -1.023 N3 YLP 6 YLP C4 C4 C 0 1 Y N N 37.984 127.754 -10.537 -5.220 -2.321 -0.214 C4 YLP 7 YLP C5 C5 C 0 1 Y N N 37.859 127.751 -12.005 -4.849 -3.342 0.676 C5 YLP 8 YLP C6 C6 C 0 1 Y N N 36.759 126.963 -12.587 -5.598 -4.531 0.671 C6 YLP 9 YLP N6 N6 N 0 1 N N N 36.598 126.936 -13.932 -5.280 -5.572 1.526 N6 YLP 10 YLP N7 N7 N 0 1 Y N N 38.822 128.525 -12.505 -3.778 -2.894 1.374 N7 YLP 11 YLP C8 C8 C 0 1 Y N N 39.540 128.992 -11.450 -3.475 -1.692 0.978 C8 YLP 12 YLP N9 N9 N 0 1 Y N N 39.047 128.517 -10.282 -4.336 -1.293 -0.001 N9 YLP 13 YLP CA CA C 0 1 N N S 43.946 134.978 -9.983 4.152 2.692 -0.240 CA YLP 14 YLP CB CB C 0 1 N N N 45.056 134.600 -8.987 4.430 1.288 0.302 CB YLP 15 YLP "C1'" "C1'" C 0 1 N N R 39.528 128.825 -8.924 -4.319 -0.005 -0.698 "C1'" YLP 16 YLP "C2'" "C2'" C 0 1 N N R 40.615 127.904 -8.449 -5.297 0.992 -0.026 "C2'" YLP 17 YLP "O2'" "O2'" O 0 1 N N N 40.470 127.760 -7.035 -6.619 0.839 -0.546 "O2'" YLP 18 YLP "C3'" "C3'" C 0 1 N N S 41.888 128.653 -8.777 -4.698 2.360 -0.434 "C3'" YLP 19 YLP "O3'" "O3'" O 0 1 N N N 42.984 128.268 -7.958 -5.386 2.889 -1.569 "O3'" YLP 20 YLP "C4'" "C4'" C 0 1 N N R 41.453 130.060 -8.467 -3.234 2.038 -0.793 "C4'" YLP 21 YLP "O4'" "O4'" O 0 1 N N N 40.099 130.128 -8.939 -3.033 0.635 -0.554 "O4'" YLP 22 YLP "C5'" "C5'" C 0 1 N N N 42.326 131.127 -9.105 -2.290 2.856 0.091 "C5'" YLP 23 YLP "O5'" "O5'" O 0 1 N N N 42.065 131.170 -10.497 -0.940 2.640 -0.326 "O5'" YLP 24 YLP OAD OAD O 0 1 N N N 44.575 140.520 -6.525 9.344 -2.758 -1.171 OAD YLP 25 YLP OAF OAF O 0 1 N N N 44.132 130.034 -11.359 0.244 4.937 0.155 OAF YLP 26 YLP OAI OAI O 0 1 N N N 42.739 131.678 -12.817 0.296 3.054 1.835 OAI YLP 27 YLP CAM CAM C 0 1 N N N 45.013 136.851 -7.723 5.980 -0.668 0.199 CAM YLP 28 YLP CAN CAN C 0 1 N N N 45.854 135.820 -8.484 5.702 0.735 -0.343 CAN YLP 29 YLP CAO CAO C 0 1 N N N 45.819 138.044 -7.228 7.253 -1.222 -0.445 CAO YLP 30 YLP NAW NAW N 0 1 N N N 45.627 139.231 -8.060 7.519 -2.565 0.074 NAW YLP 31 YLP OAY OAY O 0 1 N N N 44.116 132.534 -10.954 1.684 2.776 -0.254 OAY YLP 32 YLP CBA CBA C 0 1 N N N 45.055 140.378 -7.644 8.596 -3.253 -0.355 CBA YLP 33 YLP CBF CBF C 0 1 N N N 44.762 142.868 -8.026 10.142 -5.188 -0.466 CBF YLP 34 YLP CBK CBK C 0 1 N N N 45.058 141.522 -8.653 8.869 -4.635 0.179 CBK YLP 35 YLP PBN PBN P 0 1 N N N 43.285 131.269 -11.511 0.321 3.346 0.384 PBN YLP 36 YLP HN HN H 0 1 N N N 42.979 136.077 -8.591 5.101 4.519 -0.219 HN YLP 37 YLP HNA HNA H 0 1 N N N 42.057 135.686 -9.881 5.288 3.649 1.186 HNA YLP 38 YLP H2 H2 H 0 1 N N N 35.435 125.797 -9.754 -7.766 -3.770 -1.664 H2 YLP 39 YLP HN6 HN6 H 0 1 N N N 35.810 126.365 -14.162 -5.804 -6.388 1.513 HN6 YLP 40 YLP HN6A HN6A H 0 0 N N N 36.446 127.865 -14.268 -4.532 -5.485 2.139 HN6A YLP 41 YLP H8 H8 H 0 1 N N N 40.390 129.653 -11.532 -2.662 -1.097 1.368 H8 YLP 42 YLP HA HA H 0 1 N N N 44.294 135.841 -10.570 4.108 2.659 -1.329 HA YLP 43 YLP HB HB H 0 1 N N N 44.596 134.101 -8.122 4.562 1.336 1.383 HB YLP 44 YLP HBA HBA H 0 1 N N N 45.751 133.907 -9.483 3.590 0.635 0.067 HBA YLP 45 YLP "H1'" "H1'" H 0 1 N N N 38.686 128.785 -8.217 -4.569 -0.137 -1.751 "H1'" YLP 46 YLP "H2'" "H2'" H 0 1 N N N 40.577 126.938 -8.975 -5.291 0.872 1.058 "H2'" YLP 47 YLP "HO2'" "HO2'" H 0 0 N N N 41.146 127.181 -6.704 -7.267 1.441 -0.156 "HO2'" YLP 48 YLP "H3'" "H3'" H 0 1 N N N 42.125 128.552 -9.846 -4.743 3.060 0.400 "H3'" YLP 49 YLP "HO3'" "HO3'" H 0 0 N N N 43.754 128.766 -8.204 -6.326 3.055 -1.416 "HO3'" YLP 50 YLP "H4'" "H4'" H 0 1 N N N 41.471 130.201 -7.376 -3.051 2.265 -1.843 "H4'" YLP 51 YLP "H5'" "H5'" H 0 1 N N N 42.098 132.105 -8.657 -2.533 3.915 -0.000 "H5'" YLP 52 YLP "H5'A" "H5'A" H 0 0 N N N 43.386 130.885 -8.936 -2.403 2.545 1.129 "H5'A" YLP 53 YLP HAM HAM H 0 1 N N N 44.222 137.219 -8.393 6.112 -0.621 1.281 HAM YLP 54 YLP HAMA HAMA H 0 0 N N N 44.556 136.355 -6.854 5.140 -1.322 -0.036 HAMA YLP 55 YLP HAN HAN H 0 1 N N N 46.648 135.460 -7.813 5.570 0.688 -1.424 HAN YLP 56 YLP HANA HANA H 0 0 N N N 46.307 136.319 -9.354 6.542 1.388 -0.107 HANA YLP 57 YLP HAO HAO H 0 1 N N N 45.507 138.279 -6.200 7.121 -1.269 -1.526 HAO YLP 58 YLP HAOA HAOA H 0 0 N N N 46.886 137.777 -7.235 8.093 -0.568 -0.210 HAOA YLP 59 YLP HNAW HNAW H 0 0 N N N 45.944 139.188 -9.008 6.920 -2.960 0.726 HNAW YLP 60 YLP HBF HBF H 0 1 N N N 44.779 143.647 -8.803 10.010 -5.236 -1.547 HBF YLP 61 YLP HBFA HBFA H 0 0 N N N 43.769 142.842 -7.554 10.982 -4.535 -0.231 HBFA YLP 62 YLP HBFB HBFB H 0 0 N N N 45.523 143.093 -7.265 10.340 -6.188 -0.080 HBFB YLP 63 YLP HBK HBK H 0 1 N N N 46.049 141.567 -9.128 9.001 -4.587 1.260 HBK YLP 64 YLP HBKA HBKA H 0 0 N N N 44.294 141.316 -9.418 8.029 -5.288 -0.057 HBKA YLP 65 YLP HAF HAF H 0 1 N N N 44.232 129.612 -12.204 0.256 5.202 -0.775 HAF YLP 66 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal YLP C O DOUB N N 1 YLP C CA SING N N 2 YLP C OAY SING N N 3 YLP N CA SING N N 4 YLP N1 C2 DOUB Y N 5 YLP N1 C6 SING Y N 6 YLP C2 N3 SING Y N 7 YLP N3 C4 DOUB Y N 8 YLP C4 C5 SING Y N 9 YLP C4 N9 SING Y N 10 YLP C5 C6 DOUB Y N 11 YLP C5 N7 SING Y N 12 YLP C6 N6 SING N N 13 YLP N7 C8 DOUB Y N 14 YLP C8 N9 SING Y N 15 YLP N9 "C1'" SING N N 16 YLP CA CB SING N N 17 YLP CB CAN SING N N 18 YLP "C1'" "C2'" SING N N 19 YLP "C1'" "O4'" SING N N 20 YLP "C2'" "O2'" SING N N 21 YLP "C2'" "C3'" SING N N 22 YLP "C3'" "O3'" SING N N 23 YLP "C3'" "C4'" SING N N 24 YLP "C4'" "O4'" SING N N 25 YLP "C4'" "C5'" SING N N 26 YLP "C5'" "O5'" SING N N 27 YLP "O5'" PBN SING N N 28 YLP OAD CBA DOUB N N 29 YLP OAF PBN SING N N 30 YLP OAI PBN DOUB N N 31 YLP CAM CAN SING N N 32 YLP CAM CAO SING N N 33 YLP CAO NAW SING N N 34 YLP NAW CBA SING N N 35 YLP OAY PBN SING N N 36 YLP CBA CBK SING N N 37 YLP CBF CBK SING N N 38 YLP N HN SING N N 39 YLP N HNA SING N N 40 YLP C2 H2 SING N N 41 YLP N6 HN6 SING N N 42 YLP N6 HN6A SING N N 43 YLP C8 H8 SING N N 44 YLP CA HA SING N N 45 YLP CB HB SING N N 46 YLP CB HBA SING N N 47 YLP "C1'" "H1'" SING N N 48 YLP "C2'" "H2'" SING N N 49 YLP "O2'" "HO2'" SING N N 50 YLP "C3'" "H3'" SING N N 51 YLP "O3'" "HO3'" SING N N 52 YLP "C4'" "H4'" SING N N 53 YLP "C5'" "H5'" SING N N 54 YLP "C5'" "H5'A" SING N N 55 YLP CAM HAM SING N N 56 YLP CAM HAMA SING N N 57 YLP CAN HAN SING N N 58 YLP CAN HANA SING N N 59 YLP CAO HAO SING N N 60 YLP CAO HAOA SING N N 61 YLP NAW HNAW SING N N 62 YLP CBF HBF SING N N 63 YLP CBF HBFA SING N N 64 YLP CBF HBFB SING N N 65 YLP CBK HBK SING N N 66 YLP CBK HBKA SING N N 67 YLP OAF HAF SING N N 68 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor YLP SMILES ACDLabs 12.01 "O=C(NCCCCC(N)C(=O)OP([O-])(=O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O)CC" YLP InChI InChI 1.03 "InChI=1S/C19H30N7O9P/c1-2-12(27)22-6-4-3-5-10(20)19(30)35-36(31,32)33-7-11-14(28)15(29)18(34-11)26-9-25-13-16(21)23-8-24-17(13)26/h8-11,14-15,18,28-29H,2-7,20H2,1H3,(H,22,27)(H,31,32)(H2,21,23,24)/p-1/t10-,11+,14+,15+,18+/m0/s1" YLP InChIKey InChI 1.03 DOJLWXPRSAYJFD-MBRXSIFGSA-M YLP SMILES_CANONICAL CACTVS 3.385 "CCC(=O)NCCCC[C@H](N)C(=O)O[P](O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23" YLP SMILES CACTVS 3.385 "CCC(=O)NCCCC[CH](N)C(=O)O[P](O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23" YLP SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "CCC(=O)NCCCC[C@@H](C(=O)OP(=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O)N" YLP SMILES "OpenEye OEToolkits" 1.7.6 "CCC(=O)NCCCCC(C(=O)OP(=O)(O)OCC1C(C(C(O1)n2cnc3c2ncnc3N)O)O)N" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier YLP "SYSTEMATIC NAME" ACDLabs 12.01 "5'-O-({[(2S)-2-amino-6-(propanoylamino)hexanoyl]oxy}phosphinato)adenosine" YLP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] (2S)-2-azanyl-6-(propanoylamino)hexanoate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site YLP "Create component" 2013-11-28 EBI YLP "Initial release" 2014-03-19 RCSB #